Getting started with HISAT, StringTie, and Ballgown - Dave Tang's blog
Biotechvana
hisat2 - Bountysource
hisat2/MANUAL at master · DaehwanKimLab/hisat2 · GitHub
Worksheet 4.3 - Mapping reads using HISAT2 Authors: Mary Allen & Daniel Ramirez HISAT2 manual: https://ccb.jhu.edu/software
Worksheet_6.1– Mapping RNA-seq reads using HISAT2
Mapping with HISAT2 - Bioinformatics Team (BioITeam) at the University of Texas - UT Austin Wikis
03 From fastq files to alignments – Introduction to RNA-seq
User manual | DEWE
Chipster
BIRCH Tutorial - Differential Expression
hisat2-stringtie_wf_se.cwl - Common Workflow Language Viewer
Expression | Griffith Lab
Worksheet 4.3 - Mapping reads using HISAT2 Authors: Mary Allen & Daniel Ramirez HISAT2 manual: https://ccb.jhu.edu/software
Biotechvana
manual issue: does hisat2 support on the fly passing of --ss and --exon? · Issue #34 · gpertea/stringtie · GitHub
Compile and Software installation (II) – BCH709 Introduction to Bioinformatics
User manual | DEWE
Bioinformatics Analysis of Omics Data with the Shell & R | R-bloggers
![wiki:hisat2build [Computational biology at CSU]](https://rna.colostate.edu/2020/lib/exe/fetch.php?w=600&tok=3f7798&media=wiki:screen_shot_2018-11-15_at_3.49.44_am.png "wiki:hisat2build [Computational biology at CSU]")
wiki:hisat2build [Computational biology at CSU]
Alignment | Griffith Lab
Worksheet 4.3 - Mapping reads using HISAT2 Authors: Mary Allen & Daniel Ramirez HISAT2 manual: https://ccb.jhu.edu/software
Compile and Software installation (II) – BCH709 Introduction to Bioinformatics
Manual | HISAT2
Manual | HISAT2
Problem with HISAT2 detection of reads mapping to repeats - rna-star - Galaxy Community Help
